RetrogeneDB ID: retro_mmul_1309

Retrocopy location

• Organism: Rhesus macaque (Macaca mulatta)
• Coordinates: 17:20023597..20024051(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: RGS17
• Ensembl ID: ENSMMUG00000019078
• Aliases: None
• Description: None

Sequence

>retro_mmul_1309
ATGTGAAAAAGGCAGCAGTCCCAAAATGAAGGAACACCTGCTGTGTCTCAGGCACCTGGAAACCAAAGGCTCAACAACAT
CTGTTGCTTTCGTTGGTGCTGTTGTTTCAGCTGCTCCTGCCTCACTGTTAGGAATGAAGAAAGAGGGGAAAATGCAGGAA
TAACCACACACACTACGAAAACGGAGAGTATCCAGGTCTTAGAGGAATGCCAAAACCCCACTGCAGAGGAAGTCTTGCCC
TGGTCTCAAAATTTTGACAAGATGATGAAGTCCCCAGCAGGGAGACACCTTTTCAGAGAGTTCCTCTGAACAGAATACAA
CGAAGAGAACCTACTTTTCTGGCTTGCCTGTGAAGACTTAAAGAAAGAACAGAACAAAAAAGTAATCAAAGAAAAGAGAG
AAGGCTAGAATGATAAATGAAGATTACATTTCTATACTATCACCAAAAGAGGTC

Alignment

ORF - retro_mmul_1309 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 84.87 %
• Parental protein coverage: 100.0 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MRKRQQSQNEGTPAVSQAPGNQRPNNTCCFCWCCCCSCSCLTVRNEERGENAGRPTHTTKMESIQVLEEC
          M.KRQQSQNEGTPAVSQAPGNQR.NN.CCF.WCCC.SCSCLTVRNEERGENAG..THTTK.ESIQVLEEC
Retrocopy M*KRQQSQNEGTPAVSQAPGNQRLNNICCFRWCCCFSCSCLTVRNEERGENAGITTHTTKTESIQVLEEC

Parental  QNPTAEEVLSWSQNFDKMMKAPAGRNLFREFLRTEYSEENLLFWLACEDLK-KEQNKKVIE--EKARMIY
          QNPTAEEVL.WSQNFDKMMK.PAGR.LFREFL.TEY.EENLLFWLACEDLK.K...KK.....EKARMI.
Retrocopy QNPTAEEVLPWSQNFDKMMKSPAGRHLFREFL*TEYNEENLLFWLACEDLK>KNRTKK*SKKREKARMIN

Parental  EDYISILSPKEV
          EDYISILSPKEV
Retrocopy EDYISILSPKEV

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Expression validation based on RNA-Seq data:

Library	Retrocopy expression	Parental gene expression
SRP007412_brain	0.00 RPM	0.90 RPM
SRP007412_brain_prefrontal_cortex	0.00 RPM	1.51 RPM
SRP007412_cerebellum	0.00 RPM	0.84 RPM
SRP007412_heart	0.06 RPM	0.06 RPM
SRP007412_kidney	0.00 RPM	0.00 RPM
SRP007412_liver	0.08 RPM	0.00 RPM
SRP007412_testis	0.04 RPM	0.19 RPM

ChIP-Seq

Macaca mulatta was not studied using ChIP-Seq data.

EST

No EST(s) were mapped for retro_mmul_1309 retrocopy.

TSS

Macaca mulatta was not studied using FANTOM5 data.

Lab

retro_mmul_1309 was not experimentally validated.

Homology

Retrocopy orthology:

Retrocopy retro_mmul_1309 has 3 orthologous retrocopies within eutheria group .

Species	RetrogeneDB ID
Homo sapiens	retro_hsap_1254
Pan troglodytes	retro_ptro_3042
Gorilla gorilla	retro_ggor_987

---

Parental genes homology:

Parental genes homology involve 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Homo sapiens	ENSG00000091844	1 retrocopy	retro_hsap_1254,
Gorilla gorilla	ENSGGOG00000026033	1 retrocopy	retro_ggor_987,
Macaca mulatta	ENSMMUG00000019078	1 retrocopy	retro_mmul_1309 ,
Nomascus leucogenys	ENSNLEG00000015461	1 retrocopy	retro_nleu_2092,
Oryctolagus cuniculus	ENSOCUG00000021054	1 retrocopy	retro_ocun_1922,
Pan troglodytes	ENSPTRG00000029367	1 retrocopy	retro_ptro_3042,